2021
An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples
Ahouidi A, Ali M, Almagro-Garcia J, Amambua-Ngwa A, Amaratunga C, Amato R, Amenga-Etego L, Andagalu B, Anderson T, Andrianaranjaka V, Apinjoh T, Ariani C, Ashley E, Auburn S, Awandare G, Ba H, Baraka V, Barry A, Bejon P, Bertin G, Boni M, Borrmann S, Bousema T, Branch O, Bull P, Busby G, Chookajorn T, Chotivanich K, Claessens A, Conway D, Craig A, D'Alessandro U, Dama S, Day N, Denis B, Diakite M, Djimdé A, Dolecek C, Dondorp A, Drakeley C, Drury E, Duffy P, Echeverry D, Egwang T, Erko B, Fairhurst R, Faiz A, Fanello C, Fukuda M, Gamboa D, Ghansah A, Golassa L, Goncalves S, Hamilton W, Harrison G, Hart L, Henrichs C, Hien T, Hill C, Hodgson A, Hubbart C, Imwong M, Ishengoma D, Jackson S, Jacob C, Jeffery B, Jeffreys A, Johnson K, Jyothi D, Kamaliddin C, Kamau E, Kekre M, Kluczynski K, Kochakarn T, Konaté A, Kwiatkowski D, Kyaw M, Lim P, Lon C, Loua K, Maïga-Ascofaré O, Malangone C, Manske M, Marfurt J, Marsh K, Mayxay M, Miles A, Miotto O, Mobegi V, Mokuolu O, Montgomery J, Mueller I, Newton P, Nguyen T, Nguyen T, Noedl H, Nosten F, Noviyanti R, Nzila A, Ochola-Oyier L, Ocholla H, Oduro A, Omedo I, Onyamboko M, Ouedraogo J, Oyebola K, Pearson R, Peshu N, Phyo A, Plowe C, Price R, Pukrittayakamee S, Randrianarivelojosia M, Rayner J, Ringwald P, Rockett K, Rowlands K, Ruiz L, Saunders D, Shayo A, Siba P, Simpson V, Stalker J, Su X, Sutherland C, Takala-Harrison S, Tavul L, Thathy V, Tshefu A, Verra F, Vinetz J, Wellems T, Wendler J, White N, Wright I, Yavo W, Ye H. An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples. Wellcome Open Research 2021, 6: 42. DOI: 10.12688/wellcomeopenres.16168.1.Peer-Reviewed Original ResearchSingle nucleotide polymorphismsStrong geographic differentiationGenome variation dataHigh-quality genotypesGeographic differentiationGenome variationGenetic evidenceShort indelsEvolutionary processesStructural variantsMosquito stagesNumber variantsData-sharing networksNucleotide polymorphismsVariation dataWorldwide sampleAnalysis pipelineGenomic epidemiologyMarker of resistanceDrug resistanceSurveillance toolkitIndelsGenesLociVariants
2016
Genomic epidemiology of artemisinin resistant malaria
Amato R, Miotto O, Woodrow C, Almagro-Garcia J, Sinha I, Campino S, Mead D, Drury E, Kekre M, Sanders M, Amambua-Ngwa A, Amaratunga C, Amenga-Etego L, Andrianaranjaka V, Apinjoh T, Ashley E, Auburn S, Awandare G, Baraka V, Barry A, Boni M, Borrmann S, Bousema T, Branch O, Bull P, Chotivanich K, Conway D, Craig A, Day N, Djimdé A, Dolecek C, Dondorp A, Drakeley C, Duffy P, Echeverry D, Egwang T, Fairhurst R, Faiz A, Fanello C, Hien T, Hodgson A, Imwong M, Ishengoma D, Lim P, Lon C, Marfurt J, Marsh K, Mayxay M, Michon P, Mobegi V, Mokuolu O, Montgomery J, Mueller I, Kyaw M, Newton P, Nosten F, Noviyanti R, Nzila A, Ocholla H, Oduro A, Onyamboko M, Ouedraogo J, Phyo A, Plowe C, Price R, Pukrittayakamee S, Randrianarivelojosia M, Ringwald P, Ruiz L, Saunders D, Shayo A, Siba P, Takala-Harrison S, Thanh T, Thathy V, Verra F, Wendler J, White N, Ye H, Cornelius V, Giacomantonio R, Muddyman D, Henrichs C, Malangone C, Jyothi D, Pearson R, Rayner J, McVean G, Rockett K, Miles A, Vauterin P, Jeffery B, Manske M, Stalker J, MacInnis B, Kwiatkowski D. Genomic epidemiology of artemisinin resistant malaria. ELife 2016, 5: e08714. PMID: 26943619, PMCID: PMC4786412, DOI: 10.7554/elife.08714.Peer-Reviewed Original ResearchConceptsKelch13 mutationsArtemisinin-resistant Plasmodium falciparumArtemisinin-resistant malariaResistant Plasmodium falciparumGenomic epidemiologyLarge global surveyPublic health surveillanceArtemisinin resistanceResistant malariaCurrent epidemicHealth surveillancePlasmodium falciparumAmino acid changesEpidemiologyKelch13Non-synonymous mutations